Bioinformatic analysis of the TonB protein family

BioMetals

Volumn 20, Issue 3-4, 2007, Pages 467-483

  Chu, Byron C H ^a   Peacock, R Sean ^a   Vogel, Hans J ^a  

^a UNIVERSITY OF CALGARY   (Canada)

Author keywords

Gram negative bacteria; Iron transport; Multiple sequence alignment; TonB

Indexed keywords

BACTERIAL PROTEIN; CYANOCOBALAMIN; IRON COMPLEX; PROTEIN MECR1; PROTEIN TONB; UNCLASSIFIED DRUG;

ALPHA HELIX; AMINO ACID SEQUENCE; AMINO TERMINAL SEQUENCE; BACTEROIDETES; BIOINFORMATICS; CARBOXY TERMINAL SEQUENCE; CHLAMYDIA; CHLAMYDOPHILA; CHROMOHALOBACTER; CONFERENCE PAPER; COXIELLA; CYANOBACTERIUM; CYTOPLASM; EHRLICHIA; ESCHERICHIA COLI; FUSOBACTERIA; GEOBACTER; GRAM NEGATIVE BACTERIUM; HALOBACTERIUM; JANNASCHIA; LAWSONIA; LEGIONELLA; LEIFSONIA; MEMBRANE TRANSPORT; NUCLEOTIDE SEQUENCE; OUTER MEMBRANE; PROTEIN DOMAIN; PROTEIN FAMILY; PROTEIN FUNCTION; PROTEOBACTERIA; RICKETTSIA; SIGNAL TRANSDUCTION; WIGGLESWORTHIA; WOLBACHIA;

AMINO ACID SEQUENCE; BACTERIAL PROTEINS; COMPUTATIONAL BIOLOGY; MEMBRANE PROTEINS; MOLECULAR SEQUENCE DATA; PHYLOGENY; PROTEIN CONFORMATION; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, PROTEIN;

ESCHERICHIA COLI; NEGIBACTERIA;

EID: 34248636774     PISSN: 09660844     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10534-006-9049-4     Document Type: Conference Paper

References (51)

1. Altschul SF, Madden TL, Schaffer AA et al. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25:3389-3402
2. Beddek AJ, Sheehan BJ, Bosse JT et al. (2004) Two TonB systems in Actinobacillus pleuropneumoniae: their roles in iron acquisition and virulence. Infect Immun 72:701-708
3. Berger-Bachi B, Rohrer S (2002) Factors influencing methicillin resistance in staphylococci. Arch Microbiol 178:165-171
4. Birck C, Cha JY, Cross J et al. (2004) X-ray crystal structure of the acylated beta-lactam sensor domain of BlaR1 from Staphylococcus aureus and the mechanism of receptor activation for signal transduction. J Am Chem Soc 126:13945-13947
5. Braun V, Braun M (2002) Active transport of iron and siderophore antibiotics. Curr Opin Microbiol 5:194-201
6. Brewer S, Tolley M, Trayer IP et al. (1990) Structure and function of X-Pro dipeptide repeats in the TonB proteins of Salmonella typhimurium and Escherichia coli. J Mol Biol 216:883-895
7. Carter DM, Gagnon JN, Damlaj M et al. (2006a) Phage display reveals multiple contact sites between FhuA, an outer membrane receptor of Escherichia coli, and TonB. J Mol Biol 357:236-251
8. Carter DM, Miousse IR, Gagnon JN et al. (2006b) Interactions between TonB from Escherichia coli and the periplasmic protein FhuD. J Biol Chem
9. Chang C, Mooser A, Pluckthun A, Wlodawer A (2001) Crystal structure of the dimeric C-terminal domain of TonB reveals a novel fold. J Biol Chem 276:27535-27540
10. Chimento DP, Kadner RJ, Wiener MC (2005) Comparative structural analysis of TonB-dependent outer membrane transporters: implications for the transport cycle. Proteins 59:240-251
11. Cuff JA, Barton GJ (2000) Application of multiple sequence alignment profiles to improve protein secondary structure prediction. Proteins 40:502-511
12. Delaglio F, Grzesiek S, Vuister GW et al. (1995) NMRPipe: a multidimensional spectral processing system based on UNIX pipes. J Biomol NMR 6:277-293
13. Eisenhauer HA, Shames S, Pawelek PD, Coulton JW (2005) Siderophore transport through Escherichia coli outer membrane receptor FhuA with disulfide-tethered cork and barrel domains. J Biol Chem 280:30574-30580
14. Evans JS, Levine BA, Trayer IP, Dorman CJ, Higgins CF (1986) Sequence-imposed structural constraints in the TonB protein of E. coli. FEBS Lett 208:211-216
15. Ghosh J, Postle K (2004) Evidence for dynamic clustering of carboxy-terminal aromatic amino acids in TonB-dependent energy transduction. Mol Microbiol 51:203-213
16. Hanique S, Colombo ML, Goormaghtigh E et al. (2004) Evidence of an intramolecular interaction between the two domains of the BlaR1 penicillin receptor during the signal transduction. J Biol Chem 279:14264-14272
17. Hardt K, Joris B, Lepage S et al. (1997) The penicillin sensory transducer, BlaR, involved in the inducibility of beta-lactamase synthesis in Bacillus licheniformis is embedded in the plasma membrane via a four-alpha-helix bundle. Mol Microbiol 23:935-944
18. Higgs PI, Larsen RA, Postle K (2002) Quantification of known components of the Escherichia coli TonB energy transduction system: TonB, ExbB, ExbD and FepA. Mol Microbiol 44:271-281
19. Johnson BA, Blevins RA (1994) NMRView-a computer program for the visualization and analysis of NMR data. J Biomol NMR 4:603-614
20. Jurado RL (1997) Iron, infections, and anemia of inflammation. Clin Infect Dis 25:888-895
21. Kampfenkel K, Braun V (1992) Membrane topology of the Escherichia coli ExbD protein. J Bacteriol 174:5485-5487
22. Kampfenkel K, Braun V (1993) Topology of the ExbB protein in the cytoplasmic membrane of Escherichia coli. J Biol Chem 268:6050-6057
23. Karlsson M, Hannavy K, Higgins CF (1993) A sequence-specific function for the N-terminal signal-like sequence of the TonB protein. Mol Microbiol 8:379-388
24. Kay LE, Torchia DA, Bax A (1989) Backbone dynamics of proteins as studied by 15N inverse detected heteronuclear NMR spectroscopy: application to staphylococcal nuclease. Biochemistry 28:8972-8979
25. Khursigara CM, De Crescenzo G, Pawelek PD, Coulton JW (2004) Enhanced binding of TonB to a ligand-loaded outer membrane receptor: role of the oligomeric state of TonB in formation of a functional FhuA-TonB complex. J Biol Chem 279:7405-7412
26. Khursigara CM, De Crescenzo G, Pawelek PD, Coulton JW (2005) Deletion of the proline-rich region of TonB disrupts formation of a 2:1 complex with FhuA, an outer membrane receptor of Escherichia coli. Protein Sci 14:1266-1273
27. Klebba PE (2003) Three paradoxes of ferric enterobactin uptake. Front Biosci 8:s1422-s1436
28. Koedding J, Howard P, Kaufmann L et al. (2004) Dimerization of TonB is not essential for its binding to the outer membrane siderophore receptor FhuA of Escherichia coli. J Biol Chem 279:9978-9986
29. Koedding J, Killig F, Polzer P et al. (2005) Crystal structure of a 92-residue C-terminal fragment of TonB from Escherichia coli reveals significant conformational changes compared to structures of smaller TonB fragments. J Biol Chem 280:3022-3028
30. Larsen RA, Letain TE, Postle K (2003) In vivo evidence of TonB shuttling between the cytoplasmic and outer membrane in Escherichia coli. Mol Microbiol 49:211-218
31. Larsen RA, Postle K (2001) Conserved residues Ser(16) and His(20) and their relative positioning are essential for TonB activity, cross-linking of TonB with ExbB, and the ability of TonB to respond to proton motive force. J Biol Chem 276:8111-8117
32. Larsen RA, Wood GE, Postle K (1993) The conserved proline-rich motif is not essential for energy transduction by Escherichia coli TonB protein. Mol Microbiol 10:943-953
33. Letain TE, Postle K (1997) TonB protein appears to transduce energy by shuttling between the cytoplasmic membrane and the outer membrane in Escherichia coli. Mol Microbiol 24:271-283
34. Lubkowski J, Hennecke F, Pluckthun A, Wlodawer A (1999) Filamentous phage infection: crystal structure of g3p in complex with its coreceptor, the C-terminal domain of TolA. Structure Fold Des 7:711-722
35. Nierman WC, Feldblyum TV, Laub MT et al. (2001) Complete genome sequence of Caulobacter crescentus. Proc Natl Acad Sci USA 98:4136-4141
36. Pawelek PD, Croteau N, Ng-Thow-Hing C et al. (2006) Structure of TonB in complex with FhuA, E. coli outer membrane receptor. Science 312:1399-1402
37. Peacock RS, Weljie AM, Howard SP, Price FD, Vogel HJ (2005) The solution structure of the C-terminal domain of TonB and interaction studies with TonB box peptides. J Mol Biol 345:1185-1197
38. Postle K, Kadner RJ (2003) Touch and go: tying TonB to transport. Mol Microbiol 49:869-882
39. Ratledge C, Dover LG (2000) Iron metabolism in pathogenic bacteria. Annu Rev Microbiol 54:881-941
40. Roof SK, Allard JD, Bertrand KP, Postle K (1991) Analysis of Escherichia coli TonB membrane topology by use of PhoA fusions. J Bacteriol 173:5554-5557
41. Sauter A, Howard SP, Braun V (2003) In vivo evidence for TonB dimerization. J Bacteriol 185:5747-5754
42. Seliger SS, Mey AR, Valle AM, Payne SM (2001) The two TonB systems of Vibrio cholerae: redundant and specific functions. Mol Microbiol 39:801-812
43. Shultis DD, Purdy MD, Banchs CN, Wiener MC (2006) Outer membrane active transport: structure of the BtuB:TonB complex. Science 312:1396-1399
44. Stork M, Di Lorenzo M, Mourino S et al. (2004) Two tonB systems function in iron transport in Vibrio anguillarum, but only one is essential for virulence. Infect Immun 72:7326-7329
45. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876-4882
46. Torres AG, Redford P, Welch RA, Payne SM (2001) TonB-dependent systems of uropathogenic Escherichia coli: aerobactin and heme transport and TonB are required for virulence in the mouse. Infect Immun 69:6179-6185
47. Weinberg ED (1984) Iron withholding: a defense against infection and neoplasia. Physiol Rev 64:65-102
48. Wiener MC (2005) TonB-dependent outer membrane transport: going for Baroque? Curr Opin Struct Biol 15:394-400
49. Witty M, Sanz C, Shah A et al. (2002) Structure of the periplasmic domain of Pseudomonas aeruginosa TolA: evidence for an evolutionary relationship with the TonB transporter protein. EMBO J 21:4207-4218
50. Zhai Y, Saier MH Jr. (2001) A web-based program for the prediction of average hydropathy, average amphipathicity and average similarity of multiply aligned homologous proteins. J Mol Microbiol Biotechnol 3:285-286
51. Zhao Q, Poole K (2002) Mutational analysis of the TonB1 energy coupler of Pseudomonas aeruginosa. J Bacteriol 184:1503-1513